fixed -c with multiple input files.

rkimoakbioinformatics · Oct 22, 2024 · 6d856fa · 6d856fa
1 parent 2fc529b
commit 6d856fa
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Showing 2 changed files with 3 additions and 2 deletions.
diff --git a/oakvar/lib/base/runner.py b/oakvar/lib/base/runner.py
@@ -346,6 +346,8 @@ async def main(self) -> Optional[Dict[str, Any]]:
         for run_no in range(len(self.run_name)):
             try:
                 self.start_log(run_no)
+                if self.logger:
+                    self.logger.info(f"Processing {self.inputs[run_no]}")
                 await self.process_clean(run_no)
                 self.connect_admindb_if_needed(run_no)
                 self.start_time = time()
@@ -396,7 +398,6 @@ async def main(self) -> Optional[Dict[str, Any]]:
                 self.clean_up_at_end(run_no)
                 self.close_logger()
                 self.shutdown_logging()
-                break
         return self.report_response
 
     async def process_arguments(self, args):

diff --git a/setup.py b/setup.py
@@ -67,7 +67,7 @@ def walk_and_add(d, pkg_files):
 walk_and_add("cravat", cravat_files)
 setup(
     name="oakvar",
-    version="2.11.17",
+    version="2.11.18",
     description="A genomic variant analysis platform",
     long_description=long_description,
     long_description_content_type="text/x-rst",